PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Thecc1EG030078t1
Common NameTCM_030078
Organism
Theobroma cacao
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Byttnerioideae; Theobroma
Family NF-YC
Protein Properties Length: 136aa    MW: 14100.3 Da    PI: 11.1293
Description NF-YC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG030078t1genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NF-YC24.46.3e-0817991293
             NF-YC 12 katdfk.nhelPlarikkilkadedvkmisaeaPvllskacelfileltlrswlhaeenkrrtlkksdiaaavtrtdifdflv 93
                      ++   k   ++P+ ri + lka +  +++ a aPv l+   e++  e+   + + a++nkr+ +    i+ av + +    l+
  Thecc1EG030078t1 17 QSRSQKaGLQFPVGRIARFLKAGKYAERVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKRTRIVPRHIQLAVRNDEELSRLL 99
                      5544443679***************************************99********************999887666555 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004141.2E-764124IPR002119Histone H2A
Gene3DG3DSA:1.10.20.101.4E-609123IPR009072Histone-fold
SuperFamilySSF471132.7E-449125IPR009072Histone-fold
CDDcd000741.48E-659121No hitNo description
PfamPF001252.3E-151390IPR007125Histone H2A/H2B/H3
PRINTSPR006205.9E-511537IPR002119Histone H2A
PROSITE patternPS0004602329IPR032458Histone H2A conserved site
PRINTSPR006205.9E-514459IPR002119Histone H2A
PRINTSPR006205.9E-515972IPR002119Histone H2A
PRINTSPR006205.9E-517387IPR002119Histone H2A
PfamPF162111.1E-1893127IPR032454Histone H2A, C-terminal domain
PRINTSPR006205.9E-51101119IPR002119Histone H2A
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000786Cellular Componentnucleosome
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 136 aa     Download sequence    Send to blast
MAGRGKAIGS GAKKMGQSRS QKAGLQFPVG RIARFLKAGK YAERVGAGAP VYLAAVLEYL  60
AAEVLELAGN AARDNKRTRI VPRHIQLAVR NDEELSRLLG TVTIANGGVL PNIHNMLLPK  120
KTGTGSKAGG PAADD*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5kgf_C1e-6111301129Histone H2A type 1
5kgf_G1e-6111301129Histone H2A type 1
6c0w_C9e-6211301129Histone H2A
6c0w_G9e-6211301129Histone H2A
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtCore component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007025913.22e-91PREDICTED: probable histone H2A.3
SwissprotQ433123e-77H2A7_WHEAT; Protein H2A.7
TrEMBLA0A061GF667e-91A0A061GF66_THECC; Histone H2A
STRINGEOY285351e-91(Theobroma cacao)
Publications ? help Back to Top
  1. Motamayor JC, et al.
    The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color.
    Genome Biol., 2013. 14(6): p. r53
    [PMID:23731509]
  2. Huh GH,Matsuura Y,Meshi T,Iwabuchi M
    Differential expression of the two types of histone H2A genes in wheat.
    Biochim. Biophys. Acta, 1995. 1261(1): p. 155-60
    [PMID:7893754]